Contacts of the helix formed by residues 70 - 96 (chain B) in PDB entry 1CXZ
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with LEU 70 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60B ARG* 3.3 44.0 - - + +
63B THR* 3.6 23.1 - - + -
64B THR* 3.5 22.9 - - + +
68B ARG 3.5 5.8 + - - +
69B SER* 1.3 71.6 + - - +
71B GLY* 1.3 59.2 + - - +
72B PRO* 3.4 1.8 - - - -
73B VAL* 3.3 8.1 + - + +
74B GLU* 2.8 53.5 + - + +
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Residues in contact with GLY 71 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69B SER* 3.4 6.3 + - - -
70B LEU* 1.3 77.7 - - - +
72B PRO* 1.3 68.2 - - - +
74B GLU* 3.6 11.6 + - - +
75B LEU* 2.9 37.2 + - - +
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Residues in contact with PRO 72 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69B SER* 3.8 21.3 - - - +
70B LEU 3.6 3.1 - - - -
71B GLY* 1.3 89.0 - - - +
73B VAL* 1.3 65.2 + - + +
75B LEU* 3.3 8.7 + - + +
76B LEU* 3.1 21.7 + - - +
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Residues in contact with VAL 73 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B ALA* 3.5 31.9 - - + +
59B LEU* 4.3 18.8 - - + -
60B ARG* 3.9 22.4 - - + +
63B THR* 4.2 19.3 - - + +
69B SER 4.5 5.2 - - - +
70B LEU* 3.3 17.5 + - - +
72B PRO* 1.3 75.1 - - + +
74B GLU* 1.3 59.9 + - - +
76B LEU* 3.2 9.2 + - + +
77B LEU* 2.9 31.0 + - + +
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Residues in contact with GLU 74 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A ASP 4.9 2.5 - - - +
164A LYS* 5.0 7.4 - - - +
60B ARG* 4.7 16.0 + - - -
70B LEU* 2.8 46.2 + - + +
71B GLY* 3.6 13.4 + - - +
73B VAL* 1.3 75.4 - - - +
75B LEU* 1.3 62.1 + - + +
77B LEU* 3.3 9.8 + - - +
78B ARG* 3.0 36.4 + - + +
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Residues in contact with LEU 75 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71B GLY* 2.9 33.2 + - - +
72B PRO* 3.5 10.5 - - + +
74B GLU* 1.3 80.9 - - + +
76B LEU* 1.3 60.7 + - - +
78B ARG* 3.3 20.8 + - + +
79B GLY* 2.9 25.3 + - - -
82B ARG* 5.2 3.5 + - - +
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Residues in contact with LEU 76 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B LEU* 4.0 27.1 - - + -
56B ALA* 4.2 15.7 - - + -
59B LEU* 6.0 4.7 - - + -
72B PRO 3.1 12.9 + - - +
73B VAL* 3.2 13.9 + - + +
75B LEU* 1.3 75.4 - - - +
77B LEU* 1.3 57.2 + - - +
79B GLY* 3.1 3.5 + - - +
80B SER* 2.8 31.2 + - - -
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Residues in contact with LEU 77 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A ASP* 3.7 22.9 - - + +
164A LYS* 3.6 23.6 - - - +
53B LYS* 3.6 26.3 - - + +
56B ALA* 3.5 29.8 - - + +
57B GLU* 4.1 11.9 - - + +
60B ARG* 3.9 25.1 - - + -
73B VAL 2.9 19.5 + - - +
74B GLU* 3.5 9.2 - - - +
75B LEU 3.3 0.2 - - - -
76B LEU* 1.3 77.3 - - - +
78B ARG* 1.3 56.5 + - - +
80B SER* 3.3 6.4 + - - -
81B SER* 3.0 30.7 + - - -
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Residues in contact with ARG 78 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A LYS 3.8 14.1 - - - +
28A ASP 3.2 22.9 - - - +
29A GLN* 3.4 42.7 + - + +
32A GLU* 5.9 0.6 + - - -
74B GLU* 3.0 22.1 + - - +
75B LEU* 3.6 20.0 - - + +
76B LEU 3.2 0.2 - - - -
77B LEU* 1.3 72.7 - - - +
79B GLY* 1.3 61.2 + - - +
81B SER* 3.3 2.3 + - - -
82B ARG* 2.9 49.5 + - - +
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Residues in contact with GLY 79 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75B LEU 2.9 14.5 + - - -
76B LEU* 3.1 4.5 + - - -
78B ARG* 1.3 76.7 - - - +
80B SER* 1.3 56.0 + - - +
82B ARG* 3.5 26.9 + - - +
83B ARG* 3.0 28.9 + - - +
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Residues in contact with SER 80 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B GLU* 2.8 42.5 + - - +
52B LEU* 4.3 9.6 - - - +
53B LYS* 3.0 28.6 + - - +
76B LEU 2.8 17.6 + - - -
77B LEU* 3.5 7.6 - - - -
78B ARG 3.1 0.2 - - - -
79B GLY* 1.3 76.3 - - - +
81B SER* 1.3 59.0 + - - +
83B ARG* 3.3 0.7 + - - +
84B LEU* 3.0 24.6 + - - +
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Residues in contact with SER 81 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A SER 3.2 18.5 + - - +
27A LYS* 3.7 20.0 + - - -
28A ASP* 3.0 25.6 + - - -
53B LYS* 3.2 17.1 + - - +
77B LEU 3.0 9.0 + - - -
78B ARG 3.3 2.2 + - - -
80B SER* 1.3 73.2 - - - +
82B ARG* 1.3 60.2 + - - +
84B LEU* 3.4 9.5 + - - +
85B ASP* 3.1 32.1 + - - +
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Residues in contact with ARG 82 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A GLN* 5.5 2.5 + - - -
75B LEU* 5.2 3.6 + - - +
78B ARG* 2.9 44.9 + - - +
79B GLY* 3.6 24.5 + - - +
80B SER 3.2 0.2 - - - -
81B SER* 1.3 77.3 - - - +
83B ARG* 1.3 63.6 + - - +
85B ASP* 3.2 15.6 - - + +
86B LEU* 3.1 30.3 - - + +
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Residues in contact with ARG 83 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B GLU* 3.5 37.0 + - - +
48B LYS* 5.8 0.8 - - - +
49B GLU* 2.7 39.5 + - - -
79B GLY 3.0 18.1 + - - +
80B SER 3.6 5.2 - - - +
81B SER 3.3 0.2 - - - -
82B ARG* 1.3 74.7 - - - +
84B LEU* 1.3 64.8 - - - +
86B LEU* 3.1 14.0 + - + +
87B LEU* 3.0 54.0 + - + +
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Residues in contact with LEU 84 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A ASP* 3.6 34.1 - - + +
46B ILE* 3.5 39.5 - - + +
49B GLU* 3.6 19.3 - - + -
50B LEU* 4.3 7.0 - - - +
53B LYS* 3.8 27.4 - - + +
80B SER 3.0 18.1 + - - +
81B SER* 3.6 10.1 - - - +
82B ARG 3.4 0.2 - - - -
83B ARG* 1.3 75.8 - - - +
85B ASP* 1.3 56.6 + - - +
87B LEU* 3.4 5.9 + - + +
88B HIS* 3.0 37.1 + - - +
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Residues in contact with ASP 85 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A LYS* 3.1 34.5 + - - +
43A VAL* 5.8 6.4 - - - +
81B SER 3.1 15.6 + - - +
82B ARG* 3.2 15.6 - - + +
84B LEU* 1.3 77.8 - - - +
86B LEU* 1.3 63.7 + - + +
88B HIS* 3.1 7.7 + - - +
89B GLN* 3.0 45.1 + - - +
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Residues in contact with LEU 86 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13B TRP* 5.4 5.2 - - + -
82B ARG* 3.1 25.4 - - + +
83B ARG* 3.1 14.3 + - + +
85B ASP* 1.3 76.6 - - + +
87B LEU* 1.3 64.7 + - + +
89B GLN* 3.1 25.8 + - - +
90B GLN* 3.1 43.7 + - - +
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Residues in contact with LEU 87 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B ARG* 4.7 4.9 - - - +
42B LEU* 3.8 21.8 - - + +
45B GLU* 3.8 37.5 - - + +
46B ILE* 3.7 21.8 - - + +
49B GLU* 4.6 2.7 - - + -
83B ARG* 3.0 58.8 + - + +
84B LEU* 3.7 9.0 - - - +
85B ASP 3.3 0.2 - - - -
86B LEU* 1.3 76.7 - - + +
88B HIS* 1.3 56.5 + - - +
90B GLN* 3.7 8.3 + - - +
91B LEU* 3.1 30.4 + - - +
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Residues in contact with HIS 88 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A ARG* 6.1 0.2 - - - -
43A VAL* 3.9 27.8 - - + +
45A ASP* 2.9 41.1 + - - -
54A GLU* 3.1 33.4 + - + -
46B ILE* 3.9 24.7 - - + +
84B LEU* 3.0 23.7 + - + +
85B ASP* 3.1 6.5 + - - +
87B LEU* 1.3 76.9 - - - +
89B GLN* 1.3 58.8 + - - +
91B LEU* 3.9 10.5 - - + +
92B GLN* 3.0 29.8 + - - +
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Residues in contact with GLN 89 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13B TRP* 3.4 40.4 + - + +
85B ASP* 3.0 36.5 + - - +
86B LEU* 3.1 21.8 + - - +
88B HIS* 1.3 76.7 - - + +
90B GLN* 1.3 58.2 + - - +
92B GLN* 3.3 7.3 + - - +
93B GLU* 3.0 27.5 + - - +
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Residues in contact with GLN 90 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13B TRP* 3.8 26.9 + - + +
15B LEU* 4.0 36.3 - - + +
18B GLN* 4.8 7.5 + - - +
41B ARG* 4.3 5.5 + - - -
42B LEU* 3.9 21.4 - - + +
86B LEU* 3.1 36.2 + - - +
87B LEU* 4.1 8.1 - - - +
89B GLN* 1.3 74.8 - - - +
91B LEU* 1.3 64.3 + - - +
93B GLU* 3.2 11.9 + - - +
94B LEU* 3.1 26.7 + - - +
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Residues in contact with LEU 91 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A ARG* 5.7 6.1 - - - +
54A GLU* 5.7 3.1 - - - +
39B ARG* 4.0 44.1 - - + +
42B LEU* 3.6 15.6 - - + +
43B ARG* 4.6 14.4 - - + +
46B ILE* 4.5 13.5 - - + -
87B LEU 3.1 20.0 + - - +
88B HIS* 3.9 13.0 - - + +
90B GLN* 1.3 76.3 - - - +
92B GLN* 1.3 66.0 + - - +
94B LEU* 3.4 2.6 + - - +
95B HIS* 3.1 25.4 + - + +
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Residues in contact with GLN 92 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A ARG* 5.0 9.4 + - - -
88B HIS 3.0 20.5 + - - +
89B GLN* 3.4 8.3 - - - +
91B LEU* 1.3 78.4 - - - +
93B GLU* 1.3 64.0 + - - +
95B HIS* 3.2 26.2 + - - +
96B ALA* 3.6 11.4 + - - +
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Residues in contact with GLU 93 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13B TRP* 4.3 16.5 - - + -
14B SER* 2.7 30.6 + - - -
15B LEU* 3.0 33.6 + - - +
16B LEU* 3.6 24.7 + - + +
89B GLN 3.0 14.1 + - - +
90B GLN* 3.4 10.7 - - - +
92B GLN* 1.3 79.6 - - - +
94B LEU* 1.3 59.6 + - + +
95B HIS 3.8 0.2 + - - -
96B ALA* 3.8 7.6 + - - +
97B HIS* 3.3 22.8 + - + -
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Residues in contact with LEU 94 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15B LEU* 3.9 19.3 - - + -
16B LEU* 3.9 29.4 - - + -
19B LEU* 6.1 0.2 - - + -
35B LEU* 4.0 20.6 - - + +
38B GLU* 3.7 29.8 - - + -
39B ARG* 3.0 47.9 + - + +
42B LEU* 4.2 6.5 - - + -
90B GLN 3.1 14.8 + - - +
91B LEU 3.9 1.6 - - - +
92B GLN 3.2 0.4 - - - -
93B GLU* 1.3 82.0 - - - +
95B HIS* 1.3 65.0 + - - +
96B ALA 3.1 2.2 - - - -
97B HIS* 3.2 16.9 + - - +
98B VAL 3.8 0.5 + - - -
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Residues in contact with HIS 95 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39B ARG* 4.6 9.2 - - - +
91B LEU* 3.1 18.0 + - + +
92B GLN* 3.2 22.3 + - - +
94B LEU* 1.3 77.8 - - - +
96B ALA* 1.3 61.2 + - - +
97B HIS 3.4 0.3 + - - -
98B VAL* 3.8 16.9 + - + +
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Residues in contact with ALA 96 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92B GLN 3.6 7.4 + - - +
93B GLU* 3.8 13.2 - - - +
94B LEU 3.1 0.8 - - - -
95B HIS* 1.3 81.5 + - - +
97B HIS* 1.3 72.8 + - + +
98B VAL* 3.7 1.5 + - - +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il